The Tree of Life Home Page offers two different views of the ancestor roots of tree of life and the original ancestor, working backwards from all the animal groups to try and find that original ancestor. Those two alternative views on the relationship of the major lineages are:
The "archaea tree":
,=============== Eubacteria
|
| ,== Euryarchaeota
=====| ,=Archaea=|
`==| `== Crenarchaeota-Eocytes
|
`============ Eukaryotes
The "eocyte tree":
,======== Eubacteria
|
| ,===== Euryarchaeota
=====| |
`==| ,== Crenarchaeota-Eocytes
`==|
`== Eukaryotes
"Recent Analyses Show the Eocyte Tree to be Correct
Perhaps the most satisfying support for the eocyte theory has come from sequence analyses of EF-1 genes to reconstruct the tree of life. This is paraticularly true in the last several years, as more sophisticated tree reconstruction algorithms have been developed, and as new methods have been devised to correct for the variation of evolutionary rates at different nucleotide positions within a sequence. During the 1990's, many analyses of EF-1 , as well as EF-G and 16/18S rRNAs, have supported the eocyte tree, in contrast to the situation in the late 1980's. In support of the eocyte theory, virtually every recent analysis of EF-1 sequence has supported the eocyte theory and rejected the archael theory."
http://genomics.ucla.edu/eocyte/eotree.html
The "fermenting of rethinking and regrouping" is based on:
1. Did life evolve on earth or come from outer space (meteors, asteroids)?
2. Was earth capable of producing all the necessary components (all the amino acids necessary for the proteins, tRNA necessary for coding the genetic structure of animals, and the lipid bilayer necessary for the cell's membrane enclosure)?
Experiments have produced many - but not all - of the amino acids, and many were found on the two meteors that landed on earth in 1996 (I believe it was 96).
The recent theory for cell enclosore (the lipid bilayer) is that it developed from oily "bubbles" that fermented out of the ocean as it churned and stirred back-and-forth, smashing against rocks, barriers, and the seashores. Inside these bubbles contained the basic ingredients of life.
Experiments and indepth recent into the origin of tRNA are relatively new, recent, ongoing, and a hot scientific topic.